Publications

2015
Ramage, HR, Kumar GR, Verschueren E, Johnson JR, Von Dollen J, Johnson T, Newton B, Shah P, Horner J, Krogan NJ, Ott M.  2015.  A combined proteomics/genomics approach links hepatitis C virus infection with nonsense-mediated mRNA decay, Jan 22. Mol Cell. 57:329-40., Number 2>Website
Davis, ZH, Verschueren E, Jang GM, Kleffman K, Johnson JR, Park J, Von Dollen J, Maher MC, Johnson T, Newton W, Jager S, Shales M, Horner J, Hernandez RD, Krogan NJ, Glaunsinger BA.  2015.  Global mapping of herpesvirus-host protein complexes reveals a transcription strategy for late genes, Jan 22. Mol Cell. 57:349-60., Number 2Website
Martins, MM, Zhou AY, Corella A, Horiuchi D, Yau C, Rakshandehroo T, Gordan JD, Levin RS, Johnson J, Jascur J, Shales M, Sorrentino A, Cheah J, Clemons PA, Shamji AF, Schreiber SL, Krogan NJ, Shokat KM, McCormick F, Goga A, Bandyopadhyay S.  2015.  Linking Tumor Mutations to Drug Responses via a Quantitative Chemical-Genetic Interaction Map, Feb. Cancer Discov. 5:154-67., Number 2Website
Blakely, CM, Pazarentzos E, Olivas V, Asthana S, Yan JJ, Tan I, Hrustanovic G, Chan E, Lin L, Neel DS, Newton W, Bobb KL, Fouts TR, Meshulam J, Gubens MA, Jablons DM, Johnson JR, Bandyopadhyay S, Krogan NJ, Bivona TG.  2015.  NF-kappaB-Activating Complex Engaged in Response to EGFR Oncogene Inhibition Drives Tumor Cell Survival and Residual Disease in Lung Cancer, Apr 7. Cell Rep. 11:98-110., Number 1Website
Sidrauski, C, Tsai JC, Kampmann M, Hearn BR, Vedantham P, Jaishankar P, Sokabe M, Mendez AS, Newton BW, Tang EL, Verschueren E, Johnson JR, Krogan NJ, Fraser CS, Weissman JS, Renslo AR, Walter P.  2015.  Pharmacological dimerization and activation of the exchange factor eIF2B antagonizes the integrated stress response, Apr 15. Elife. 4Website
2014
Downey, M, Johnson JR, Davey NE, Newton BW, Johnson TL, Galaang S, Seller CA, Krogan N, Toczyski DP.  2014.  Acetylome profiling reveals overlap in the regulation of diverse processes by sirtuins, Gcn5 and Esa1, Nov 7. Mol Cell Proteomics. Website
Lin, C, Yao E, Wang K, Nozawa Y, Shimizu H, Johnson JR, Chen JN, Krogan NJ, Chuang PT.  2014.  Regulation of Sufu activity by p66beta and Mycbp provides new insight into vertebrate Hedgehog signaling, Nov 15. Genes Dev. 28:2547-63., Number 22 Website
Eifler, TT, Shao W, Bartholomeeusen K, Fujinaga K, Jager S, Johnson J, Luo Z, Krogan N, Peterlin BM.  2014.  CDK12 increases 3' end processing of growth factor-induced c-FOS transcripts, Nov 10. Mol Cell Biol. Website
Morris, JH, Knudsen GM, Verschueren E, Johnson JR, Cimermancic P, Greninger AL, Pico AR.  2014.  Affinity purification-mass spectrometry and network analysis to understand protein-protein interactions, Nov. Nat Protoc. 9:2539-54., Number 11 Website
Lu, H, Li Z, Xue Y, Schulze-Gahmen U, Johnson JR, Krogan NJ, Alber T, Zhou Q.  2014.  AFF1 is a ubiquitous P-TEFb partner to enable Tat extraction of P-TEFb from 7SK snRNP and formation of SECs for HIV transactivation, Jan 7. Proc Natl Acad Sci U S A. 111:E15-24., Number 1 Website
Monroe, KM, Yang Z, Johnson JR, Geng X, Doitsh G, Krogan NJ, Greene WC.  2014.  IFI16 DNA sensor is required for death of lymphoid CD4 T cells abortively infected with HIV, Jan 24. Science. 343:428-32., Number 6169 Website
2013
Haber, JE, Braberg H, Wu Q, Alexander R, Haase J, Ryan C, Lipkin-Moore Z, Franks-Skiba KE, Johnson T, Shales M, Lenstra TL, Holstege FC, Johnson JR, Bloom K, Krogan NJ.  2013.  Systematic triple-mutant analysis uncovers functional connectivity between pathways involved in chromosome regulation, Jun 27. Cell Rep. 3:2168-78., Number 6 Website
Albin, JS, Anderson JS, Johnson JR, Harjes E, Matsuo H, Krogan NJ, Harris RS.  2013.  Dispersed Sites of HIV Vif-Dependent Polyubiquitination in the DNA Deaminase APOBEC3F, Jan 11. Journal of molecular biology. Website
2012
Li, M, Shandilya SM, Carpenter MA, Rathore A, Brown WL, Perkins AL, Harki DA, Solberg J, Hook DJ, Pandey KK, Parniak MA, Johnson JR, Krogan NJ, Somasundaran M, Ali A, Schiffer CA, Harris RS.  2012.  First-In-Class Small Molecule Inhibitors of the Single-Strand DNA Cytosine Deaminase APOBEC3G, Mar 16. ACS chemical biology. 7:506-17., Number 3 Website
Jager, S, Cimermancic P, Gulbahce N, Johnson JR, McGovern KE, Clarke SC, Shales M, Mercenne G, Pache L, Hernandez H, Li K, Jang GM, Roth SL, Akiva E, Marlett J, Stephens M, D'Orso I, Fernandes J, Fahey M, Mahon C, O'Donoghue AJ, Todorovic A, Morris JH, Maltby DA, Alber T, Cagney G, Bushman FD, Young JA, Chanda SK, Sundquist WI, Kortemme T, Hernandez RD, Craik CS, Burlingame A, Sali A, Frankel AD, Krogan NJ.  2012.  Global landscape of HIV-human protein complexes, Jan 19. Nature. 481:365-70., Number 7381 Website
2011
Naji, S, Ambrus G, Cimermancic P, Reyes JR, Johnson JR, Filbrandt R, Huber MD, Vesely P, Krogan NJ, Yates JR, Saphire AC, Gerace L.  2011.  Host cell interactome of HIV-1 Rev includes RNA helicases involved in multiple facets of virus production, Dec 15. Molecular & cellular proteomics : MCP. 11(4) Website